Nitrogen limitation reveals large reserves in metabolic and translational capacities of yeast
Journal article, 2020

Cells maintain reserves in their metabolic and translational capacities as a strategy to quickly respond to changing environments. Here we quantify these reserves by stepwise reducing nitrogen availability in yeast steady-state chemostat cultures, imposing severe restrictions on total cellular protein and transcript content. Combining multi-omics analysis with metabolic modeling, we find that seven metabolic superpathways maintain >50% metabolic capacity in reserve, with glucose metabolism maintaining >80% reserve capacity. Cells maintain >50% reserve in translational capacity for 2490 out of 3361 expressed genes (74%), with a disproportionately large reserve dedicated to translating metabolic proteins. Finally, ribosome reserves contain up to 30% sub-stoichiometric ribosomal proteins, with activation of reserve translational capacity associated with selective upregulation of 17 ribosomal proteins. Together, our dataset provides a quantitative link between yeast physiology and cellular economics, which could be leveraged in future cell engineering through targeted proteome streamlining.

Author

Rosemary Yu

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Kate Campbell

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Rui Pereira

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Johan Björkeroth

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Qi Qi

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Egor Vorontsov

University of Gothenburg

C. Sihlbom

University of Gothenburg

Jens B Nielsen

Technical University of Denmark (DTU)

BioInnovation Institute

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Nature Communications

2041-1723 (ISSN)

Vol. 11 1 1881

Subject Categories

Cell Biology

Medical Biotechnology (with a focus on Cell Biology (including Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)

Other Industrial Biotechnology

DOI

10.1038/s41467-020-15749-0

PubMed

32312967

More information

Latest update

6/24/2020